Wesley C. Warren

The paper presents a spatial cell atlas comparing surface and cave-dwelling Mexican tetra fish brains, revealing transcriptional changes across cell types linked to cave adaptation.

This study creates a single-cell atlas of Mexican cavefish brains, revealing differences in cell types and gene expression linked to evolved disease resilience.

The paper shows cavefish have improved olfaction through physiological adaptations, not expanded chemosensory receptors, and demonstrates reduced flow rate in olfactory pits enhances foraging.

The paper identifies convergent genomic adaptations in brood parasitic birds, including genes related to spermatogenesis and nervous system development, across independent origins of parasitism.

The paper identifies recurrent deletions in cavefish genomes linked to adaptive traits, showing their role in repeated evolution through positive selection.

The paper investigates DNA damage and cellular stress in short-sleeping Mexican cavefish, finding elevated DNA damage markers and reduced DNA repair responses compared to surface fish.

The paper investigates how hybridization affects gene expression in brain tissues by identifying cell type-specific regulatory variation in interspecies fish hybrids.

The paper generates genome assemblies for ten brood parasitic bird species and their outgroups, enabling comparative genomic analyses of obligate brood parasitism evolution.

The paper compares single-cell profiles of Xiphophorus melanomas to human melanomas, showing that Xiphophorus melanomas mimic human melanoma cellular heterogeneity.

This study uses single-cell sequencing to analyze pig lung immune responses to influenza infection and oseltamivir treatment, identifying conserved and species-specific features.

The ChickenGTEx project provides a multi-tissue reference of regulatory variants in chicken, analyzing their functional impacts and utility in genetics, genomics, and evolutionary studies.

The paper investigates postprandial sleep in Mexican cavefish and surface fish, finding that larvae exhibit postprandial sleep while adults do not, suggesting its role in energy conservation.

The paper presents a single-nucleus atlas of immune and non-immune cell types in chicken immune organs, revealing transcriptomic diversity and intercellular communication in response to bacterial infection.

This paper presents chromosome-scale assemblies of Astyanax mexicanus surface and cave populations to study genetic basis of adaptation to cave environments.

The paper identifies structurally divergent regions in primate genomes and quantifies the impact of structural variants across multiple species.

The paper provides complete genomes for all 26 Xiphophorus species, resolves conflicting phylogeny, and shows hybridization precedes speciation in this genus.

The paper improves genomic inference by masking haplotigs in the eastern oyster genome, enhancing SNP discovery and diversity estimates.

The paper sequences and annotates the genomes of two sand fly species, identifying genes related to vector biology and population structure to aid in leishmaniasis control.

The paper presents two genome assemblies for the European starling, using long-read transcript data and homology-based annotation to improve assembly quality and provide a reference for population genetics.

The paper summarizes methods and lessons from assembling 16 vertebrate genomes, highlights the importance of long-read sequencing, and introduces the Vertebrate Genomes Project to generate complete reference genomes for all vertebrate species.

This paper presents a domestic cat whole exome sequencing resource, demonstrating its effectiveness in identifying known and novel disease-associated variants across various breeds.

The paper presents two high-quality Basenji genome assemblies and compares structural variations across three dog breeds, highlighting the impact of reference genome choice on variant detection.

The paper presents a chromosome-level genome of surface fish Astyanax mexicanus and uses it to identify genetic factors contributing to trait evolution in cavefish populations.

This study presents the first genome annotation of a capuchin monkey and identifies genes under positive selection related to longevity, brain development, and adaptation to diverse environments.

The paper presents a new domestic cat genome assembly using long-read sequencing, identifies novel variants associated with cancer and dwarfism, and highlights the utility of feline genomics for biomedical research.

The paper presents a high-quality quail genome and uses it to study social behavior, photoperiodism, and immune response to H5N1 influenza.

The paper identifies homozygous protein-truncating variants in vervet monkeys using whole genome sequencing and explores their potential impact on early infant mortality.

This study provides insights into the biology of the stable fly by combining genome sequencing, microbiome analysis, and RNA-seq to identify genes related to reproduction, host interactions, and pest control.

The paper presents a comparative genomic analysis of six Glossina species, identifying genetic features related to their unique biology and vectorial capacity.

The paper updates the rock pigeon genome assembly and annotation, improving tools for evolutionary and functional genetic studies.